Pests, diseases, and aridity have shaped the genome of Corymbia citriodora

Healey, Adam L.; Shepherd, Mervyn; King, Graham J.; Butler, Jakob B.; Freeman, Jules S.; Lee, David J.; Potts, Brad M.; Silva-Junior, Orzenil B.; Baten, Abdul; Jenkins, Jerry; Shu, Shengqiang; Lovell, John T.; Sreedasyam, Avinash; Grimwood, Jane; Furtado, Agnelo; Grattapaglia, Dario; Barry, Kerrie W.; Hundley, Hope; Simmons, Blake A.; Schmutz, Jeremy; Vaillancourt, René E.; Henry, Robert J.

doi:10.1038/s42003-021-02009-0

Pests, diseases, and aridity have shaped the genome of Corymbia citriodora

Journal Article · Mon May 10 00:00:00 EDT 2021 · Communications Biology

DOI:https://doi.org/10.1038/s42003-021-02009-0· OSTI ID:1816185

^[1]; ^[2]; ^[2]; ^[3]; ^[4]; ^[5]; Potts, Brad M. ^[6]; Silva-Junior, Orzenil B. ^[7]; ^[8]; ^[9]; ^[10]; ^[9]; Sreedasyam, Avinash ^[9]; ^[9]; Furtado, Agnelo ^[11]; Grattapaglia, Dario ^[12]; Barry, Kerrie W. ^[10]; Hundley, Hope ^[10]; ^[13]; ^[14] more »

HudsonAlpha Inst. for Biotechnology, Huntsville, AL (United States); Univ. of Queensland, Brisbane, QLD (Australia); OSTI
Southern Cross Univ., Lismore, NSW (Australia). Southern Cross Plant Science
Univ. of Tasmania, Hobart, TAS (Australia). School of Natural Sciences
Univ. of Tasmania, Hobart, TAS (Australia). School of Natural Sciences; Univ. of Tasmania, Hobart, TAS (Australia). ARC Training Centre for Forest Value; Scion, Rotorua (New Zealand)
Univ. of the Sunshine Coast, Sippy Downs, QLD (Australia). Forest Industries Research Centre
Univ. of Tasmania, Hobart, TAS (Australia). School of Natural Sciences; Univ. of Tasmania, Hobart, TAS (Australia). ARC Training Centre for Forest Value
EMBRAPA Genetic Resources and Biotechnology, Brasília (Brazil)
Southern Cross Univ., Lismore, NSW (Australia). Southern Cross Plant Science; Inst. of Precision Medicine & Bioinformatics, Camperdown, NSW (Australia)
HudsonAlpha Inst. for Biotechnology, Huntsville, AL (United States)
USDOE Joint Genome Institute (JGI), Berkeley, CA (United States)
Univ. of Queensland, Brisbane, QLD (Australia)
EMBRAPA Genetic Resources and Biotechnology, Brasília (Brazil); Universidade Catolica de Brasilia, Taguatinga (Brazil). Genomic Science Program
Univ. of Queensland, Brisbane, QLD (Australia); Joint BioEnergy Institute (JBEI), Emeryville, CA (United States)
HudsonAlpha Inst. for Biotechnology, Huntsville, AL (United States); USDOE Joint Genome Institute (JGI), Berkeley, CA (United States)

Corymbia citriodora is a member of the predominantly Southern Hemisphere Myrtaceae family, which includes the eucalypts (Eucalyptus, Corymbia and Angophora; ~800 species). Corymbia is grown for timber, pulp and paper, and essential oils in Australia, South Africa, Asia, and Brazil, maintaining a high-growth rate under marginal conditions due to drought, poor-quality soil, and biotic stresses. To dissect the genetic basis of these desirable traits, we sequenced and assembled the 408 Mb genome of Corymbia citriodora, anchored into eleven chromosomes. Comparative analysis with Eucalyptus grandis reveals high synteny, although the two diverged approximately 60 million years ago and have different genome sizes (408 vs 641 Mb), with few large intra-chromosomal rearrangements. C. citriodora shares an ancient whole-genome duplication event with E. grandis but has undergone tandem gene family expansions related to terpene biosynthesis, innate pathogen resistance, and leaf wax formation, enabling their successful adaptation to biotic/abiotic stresses and arid conditions of the Australian continent.

View Accepted Manuscript (DOE)

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1816185

Alternate ID(s):: OSTI ID: 1827339

Journal Information:: Communications Biology, Journal Name: Communications Biology Journal Issue: 1 Vol. 4; ISSN 2399-3642

Publisher:: Springer NatureCopyright Statement

Country of Publication:: United States

Language:: English

References (112)

A rapid method for tissue collection and high-throughput isolation of genomic DNA from mature trees Tibbits, Josquin F. G.; McManus, Luke J.; Spokevicius, Antanas V. Plant Molecular Biology Reporter, Vol. 24, Issue 1 https://doi.org/10.1007/BF02914048	journal	March 2006
Characterization of a large sex determination region in Salix purpurea L. (Salicaceae) Zhou, Ran; Macaya-Sanz, David; Rodgers-Melnick, Eli Molecular Genetics and Genomics, Vol. 293, Issue 6 https://doi.org/10.1007/s00438-018-1473-y	journal	July 2018
Nuclear genome size variation in fleshy-fruited Neotropical Myrtaceae da Costa, Itayguara Ribeiro; Dornelas, Marcelo Carnier; Forni-Martins, Eliana Regina Plant Systematics and Evolution, Vol. 276, Issue 3-4 https://doi.org/10.1007/s00606-008-0088-x	journal	October 2008
Mapping FLS2 function to structure: LRRs, kinase and its working bits Robatzek, Silke; Wirthmueller, Lennart Protoplasma, Vol. 250, Issue 3 https://doi.org/10.1007/s00709-012-0459-6	journal	October 2012
Classifying genotype by environment interactions for targeted germplasm deployment with a focus on Eucalyptus Brawner, J. T.; Lee, D. J.; Meder, R. Euphytica, Vol. 191, Issue 3 https://doi.org/10.1007/s10681-013-0892-4	journal	March 2013
Are tree breeders properly predicting genetic gain? A case study involving Corymbia species Tambarussi, Evandro Vagner; Pereira, Fernanda Bortolanza; da Silva, Paulo Henrique Müller Euphytica, Vol. 214, Issue 8 https://doi.org/10.1007/s10681-018-2229-9	journal	August 2018
A Metabolomic Approach to Identifying Chemical Mediators of Mammal–Plant Interactions Tucker, David J.; Wallis, Ian Robert; Bolton, Jessica M. Journal of Chemical Ecology, Vol. 36, Issue 7 https://doi.org/10.1007/s10886-010-9803-5	journal	June 2010
The evolution of foliar terpene diversity in Myrtaceae Padovan, Amanda; Keszei, András; Külheim, Carsten Phytochemistry Reviews, Vol. 13, Issue 3 https://doi.org/10.1007/s11101-013-9331-3	journal	October 2013
Relationships between early growth and Quambalaria shoot blight tolerance in Corymbia citriodora progeny trials established in Queensland, Australia Brawner, Jeremy T.; Lee, David J.; Hardner, Craig M. Tree Genetics & Genomes, Vol. 7, Issue 4 https://doi.org/10.1007/s11295-011-0372-8	journal	February 2011
Progress in Myrtaceae genetics and genomics: Eucalyptus as the pivotal genus Grattapaglia, Dario; Vaillancourt, René E.; Shepherd, Merv Tree Genetics & Genomes, Vol. 8, Issue 3 https://doi.org/10.1007/s11295-012-0491-x	journal	April 2012
Independent QTL underlie resistance to the native pathogen Quambalaria pitereka and the exotic pathogen Austropuccinia psidii in Corymbia Butler, Jakob B.; Potts, Brad M.; Vaillancourt, René E. Tree Genetics & Genomes, Vol. 15, Issue 5 https://doi.org/10.1007/s11295-019-1378-x	journal	August 2019
Reciprocal and advanced generation hybrids between Corymbia citriodora and C. torelliana: forestry breeding and the risk of gene flow Dickinson, Geoffrey R.; Wallace, Helen M.; Lee, David J. Annals of Forest Science, Vol. 70, Issue 1 https://doi.org/10.1007/s13595-012-0231-2	journal	August 2012
Basic local alignment search tool Altschul, Stephen F.; Gish, Warren; Miller, Webb Journal of Molecular Biology, Vol. 215, Issue 3, p. 403-410 https://doi.org/10.1016/S0022-2836(05)80360-2	journal	October 1990
The formation and function of plant volatiles: perfumes for pollinator attraction and defense Pichersky, Eran; Gershenzon, Jonathan Current Opinion in Plant Biology, Vol. 5, Issue 3 https://doi.org/10.1016/S1369-5266(02)00251-0	journal	June 2002
Biosynthesis of flavonoids and effects of stress Winkel-Shirley, Brenda Current Opinion in Plant Biology, Vol. 5, Issue 3 https://doi.org/10.1016/S1369-5266(02)00256-X	journal	June 2002
Assessment and prioritisation of plant species at risk from myrtle rust (Austropuccinia psidii) under current and future climates in Australia Berthon, K.; Esperon-Rodriguez, M.; Beaumont, L. J. Biological Conservation, Vol. 218 https://doi.org/10.1016/j.biocon.2017.11.035	journal	February 2018
The role of ABA and MAPK signaling pathways in plant abiotic stress responses Danquah, Agyemang; de Zelicourt, Axel; Colcombet, Jean Biotechnology Advances, Vol. 32, Issue 1 https://doi.org/10.1016/j.biotechadv.2013.09.006	journal	January 2014
Australian-Antarctic breakup and seafloor spreading: Balancing geological and geophysical constraints Williams, Simon E.; Whittaker, Joanne M.; Halpin, Jacqueline A. Earth-Science Reviews, Vol. 188 https://doi.org/10.1016/j.earscirev.2018.10.011	journal	January 2019
Depth distribution of roots of Eucalyptus dunnii and Corymbia citriodora subsp. variegata in different soil conditions Grant, John C.; Nichols, J. Doland; Yao, R. Ling Forest Ecology and Management, Vol. 269 https://doi.org/10.1016/j.foreco.2011.12.033	journal	April 2012
Spotted gums and hybrids: Impact of pests and diseases, ontogeny and climate on tree performance Bonora, Flávia Sarti; Hayes, Richard Andrew; Nahrung, Helen F. Forest Ecology and Management, Vol. 472 https://doi.org/10.1016/j.foreco.2020.118235	journal	September 2020
The regulatory role of shikimate in plant phenylalanine metabolism Adams, Z. P.; Ehlting, J.; Edwards, R. Journal of Theoretical Biology, Vol. 462 https://doi.org/10.1016/j.jtbi.2018.11.005	journal	February 2019
Abundance and distribution of leaf wax n-alkanes in leaves of Acacia and Eucalyptus trees along a strong humidity gradient in northern Australia Hoffmann, Bernd; Kahmen, Ansgar; Cernusak, Lucas A. Organic Geochemistry, Vol. 62 https://doi.org/10.1016/j.orggeochem.2013.07.003	journal	September 2013
The genomic basis of adaptation in plants Flood, Pádraic J.; Hancock, Angela M. Current Opinion in Plant Biology, Vol. 36 https://doi.org/10.1016/j.pbi.2017.02.003	journal	April 2017
Interpreting the modern distribution of Myrtaceae using a dated molecular phylogeny Thornhill, Andrew H.; Ho, Simon Y. W.; Külheim, Carsten Molecular Phylogenetics and Evolution, Vol. 93 https://doi.org/10.1016/j.ympev.2015.07.007	journal	December 2015
The willow genome and divergent evolution from poplar after the common genome duplication Dai, Xiaogang; Hu, Quanjun; Cai, Qingle Cell Research, Vol. 24, Issue 10 https://doi.org/10.1038/cr.2014.83	journal	July 2014
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla No authors listed Nature, Vol. 449, Issue 7161, p. 463-467 https://doi.org/10.1038/nature06148	journal	August 2007
Genome sequence of the palaeopolyploid soybean Schmutz, Jeremy; Cannon, Steven B.; Schlueter, Jessica Nature, Vol. 463, Issue 7278 https://doi.org/10.1038/nature08670	journal	January 2010
The genome of Eucalyptus grandis Myburg, Alexander A.; Grattapaglia, Dario; Tuskan, Gerald A. Nature, Vol. 510, Issue 7505 https://doi.org/10.1038/nature13308	journal	June 2014
Genome sequence and genetic diversity of European ash trees Sollars, Elizabeth S. A.; Harper, Andrea L.; Kelly, Laura J. Nature, Vol. 541, Issue 7636 https://doi.org/10.1038/nature20786	journal	December 2016
Flammable biomes dominated by eucalypts originated at the Cretaceous–Palaeogene boundary Crisp, Michael D.; Burrows, Geoffrey E.; Cook, Lyn G. Nature Communications, Vol. 2, Issue 1 https://doi.org/10.1038/ncomms1191	journal	February 2011
The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution Verde, Ignazio; Abbott, Albert G.; Scalabrin, Simone Nature Genetics, Vol. 45, Issue 5 https://doi.org/10.1038/ng.2586	journal	March 2013
High-quality de novo assembly of the apple genome and methylome dynamics of early fruit development Daccord, Nicolas; Celton, Jean-Marc; Linsmith, Gareth Nature Genetics, Vol. 49, Issue 7 https://doi.org/10.1038/ng.3886	journal	June 2017
A framework for variation discovery and genotyping using next-generation DNA sequencing data DePristo, Mark A.; Banks, Eric; Poplin, Ryan Nature Genetics, Vol. 43, Issue 5 https://doi.org/10.1038/ng.806	journal	April 2011
Fast and sensitive protein alignment using DIAMOND Buchfink, Benjamin; Xie, Chao; Huson, Daniel H. Nature Methods, Vol. 12, Issue 1 https://doi.org/10.1038/nmeth.3176	journal	November 2014
Determinants of genetic diversity Ellegren, Hans; Galtier, Nicolas Nature Reviews Genetics, Vol. 17, Issue 7 https://doi.org/10.1038/nrg.2016.58	journal	June 2016
Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus Butler, Jakob B.; Freeman, Jules S.; Potts, Brad M. Heredity, Vol. 121, Issue 1 https://doi.org/10.1038/s41437-018-0058-1	journal	March 2018
The genomic landscape of molecular responses to natural drought stress in Panicum hallii Lovell, John T.; Jenkins, Jerry; Lowry, David B. Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-07669-x	journal	December 2018
Oak genome reveals facets of long lifespan Plomion, Christophe; Aury, Jean-Marc; Amselem, Joëlle Nature Plants, Vol. 4, Issue 7 https://doi.org/10.1038/s41477-018-0172-3	journal	June 2018
Identification of a molecular marker associated with lignotuber in Eucalyptus ssp Bortoloto, Tânia M.; Fuchs-Ferraz, Maria C. P.; Kettener, Karine Scientific Reports, Vol. 10, Issue 1 https://doi.org/10.1038/s41598-020-60308-8	journal	February 2020
The leaf waxes of the genus Eucalyptus L'Héritier Hallam, Nd; Chambers, Tc Australian Journal of Botany, Vol. 18, Issue 3 https://doi.org/10.1071/BT9700335	journal	January 1970
Studies on Leaf Characteristics of a Cline of Eucalyptus urnigera From Mount Wellington, Tasmania. I. Water Repellency and the Freezing of Leaves Thomas, Da; Barber, Hn Australian Journal of Botany, Vol. 22, Issue 3 https://doi.org/10.1071/BT9740501	journal	January 1974
A dated molecular perspective of eucalypt taxonomy, evolution and diversification Thornhill, Andrew H.; Crisp, Michael D.; Külheim, Carsten Australian Systematic Botany, Vol. 32, Issue 1 https://doi.org/10.1071/SB18015	journal	April 2019
Plant intracellular innate immune receptor Resistance to Pseudomonas syringae pv. maculicola 1 (RPM1) is activated at, and functions on, the plasma membrane Gao, Z.; Chung, E. -H.; Eitas, T. K. Proceedings of the National Academy of Sciences, Vol. 108, Issue 18 https://doi.org/10.1073/pnas.1104410108	journal	April 2011
Plant terpenoid synthases: Molecular biology and phylogenetic analysis Bohlmann, J.; Meyer-Gauen, G.; Croteau, R. Proceedings of the National Academy of Sciences, Vol. 95, Issue 8 https://doi.org/10.1073/pnas.95.8.4126	journal	April 1998
Physical Association of Arabidopsis Hypersensitive Induced Reaction Proteins (HIRs) with the Immune Receptor RPS2 Qi, Yiping; Tsuda, Kenichi; Nguyen, Le V. Journal of Biological Chemistry, Vol. 286, Issue 36 https://doi.org/10.1074/jbc.M110.211615	journal	September 2011
Achievements in forest tree genetic improvement in Australia and New Zealand 2: Development of Corymbia species and hybrids for plantations in eastern Australia Lee, David J. Australian Forestry, Vol. 70, Issue 1 https://doi.org/10.1080/00049158.2007.10676256	journal	January 2007
Nuclear DNA Amounts in Angiosperms: Progress, Problems and Prospects Bennett, M. D. Annals of Botany, Vol. 95, Issue 1 https://doi.org/10.1093/aob/mci003	journal	January 2005
Fast and accurate short read alignment with Burrows-Wheeler transform Li, H.; Durbin, R. Bioinformatics, Vol. 25, Issue 14 https://doi.org/10.1093/bioinformatics/btp324	journal	May 2009
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data Robinson, M. D.; McCarthy, D. J.; Smyth, G. K. Bioinformatics, Vol. 26, Issue 1 https://doi.org/10.1093/bioinformatics/btp616	journal	November 2009
GOSemSim: an R package for measuring semantic similarity among GO terms and gene products Yu, G.; Li, F.; Qin, Y. Bioinformatics, Vol. 26, Issue 7 https://doi.org/10.1093/bioinformatics/btq064	journal	February 2010
Scaffolding pre-assembled contigs using SSPACE Boetzer, Marten; Henkel, Christiaan V.; Jansen, Hans J. Bioinformatics, Vol. 27, Issue 4 https://doi.org/10.1093/bioinformatics/btq683	journal	December 2010
STAR: ultrafast universal RNA-seq aligner Dobin, Alexander; Davis, Carrie A.; Schlesinger, Felix Bioinformatics, Vol. 29, Issue 1 https://doi.org/10.1093/bioinformatics/bts635	journal	October 2012
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs Simão, Felipe A.; Waterhouse, Robert M.; Ioannidis, Panagiotis Bioinformatics, Vol. 31, Issue 19 https://doi.org/10.1093/bioinformatics/btv351	journal	June 2015
BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS: Table 1. Hoff, Katharina J.; Lange, Simone; Lomsadze, Alexandre Bioinformatics, Vol. 32, Issue 5 https://doi.org/10.1093/bioinformatics/btv661	journal	November 2015
The draft nuclear genome assembly of Eucalyptus pauciflora: a pipeline for comparing de novo assemblies Wang, Weiwen; Das, Ashutosh; Kainer, David GigaScience, Vol. 9, Issue 1 https://doi.org/10.1093/gigascience/giz160	journal	January 2020
PAML 4: Phylogenetic Analysis by Maximum Likelihood Yang, Z. Molecular Biology and Evolution, Vol. 24, Issue 8 https://doi.org/10.1093/molbev/msm088	journal	April 2007
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability Katoh, K.; Standley, D. M. Molecular Biology and Evolution, Vol. 30, Issue 4 https://doi.org/10.1093/molbev/mst010	journal	January 2013
KEGG: Kyoto Encyclopedia of Genes and Genomes Kanehisa, Minoru; Goto, Susumu Nucleic Acids Research, Vol. 28, Issue 1, p. 27-30 https://doi.org/10.1093/nar/28.1.27	journal	January 2000
Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies Haas, B. J. Nucleic Acids Research, Vol. 31, Issue 19 https://doi.org/10.1093/nar/gkg770	journal	October 2003
PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments Suyama, M.; Torrents, D.; Bork, P. Nucleic Acids Research, Vol. 34, Issue Web Server https://doi.org/10.1093/nar/gkl315	journal	July 2006
Darwinian evolution in the light of genomics Koonin, E. V. Nucleic Acids Research, Vol. 37, Issue 4 https://doi.org/10.1093/nar/gkp089	journal	December 2008
MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity Wang, Y.; Tang, H.; DeBarry, J. D. Nucleic Acids Research, Vol. 40, Issue 7 https://doi.org/10.1093/nar/gkr1293	journal	January 2012
Regulated functional alternative splicing in Drosophila Venables, J. P.; Tazi, J.; Juge, F. Nucleic Acids Research, Vol. 40, Issue 1 https://doi.org/10.1093/nar/gkr648	journal	September 2011
Phytozome: a comparative platform for green plant genomics Goodstein, David M.; Shu, Shengqiang; Howson, Russell Nucleic Acids Research, Vol. 40, Issue D1 https://doi.org/10.1093/nar/gkr944	journal	November 2011
Interactive Tree Of Life (iTOL) v4: recent updates and new developments Letunic, Ivica; Bork, Peer Nucleic Acids Research, Vol. 47, Issue W1 https://doi.org/10.1093/nar/gkz239	journal	April 2019
Cellular Organization and Regulation of Plant Glycerolipid Metabolism Lavell, A. A.; Benning, C. Plant and Cell Physiology, Vol. 60, Issue 6 https://doi.org/10.1093/pcp/pcz016	journal	January 2019
Ab initio Gene Finding in Drosophila Genomic DNA Salamov, Asaf A.; Solovyev, Victor V. Genome Research, Vol. 10, Issue 4, p. 516-522 https://doi.org/10.1101/gr.10.4.516	journal	April 2000
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data McKenna, A.; Hanna, M.; Banks, E. Genome Research, Vol. 20, Issue 9 https://doi.org/10.1101/gr.107524.110	journal	July 2010
The genome of the pear (Pyrus bretschneideri Rehd.) Wu, J.; Wang, Z.; Shi, Z. Genome Research, Vol. 23, Issue 2 https://doi.org/10.1101/gr.144311.112	journal	November 2012
Computational Inference of Homologous Gene Structures in the Human Genome Yeh, R. -F.; Lim, L. P.; Burge, C. B. Genome Research, Vol. 11, Issue 5 https://doi.org/10.1101/gr.175701	journal	May 2001
BLAT---The BLAST-Like Alignment Tool Kent, W. J. Genome Research, Vol. 12, Issue 4 https://doi.org/10.1101/gr.229202	journal	March 2002
Whole-Genome Sequence Assembly for Mammalian Genomes: Arachne 2 Jaffe, D. B. Genome Research, Vol. 13, Issue 1 https://doi.org/10.1101/gr.828403	journal	January 2003
The Formation and Function of Plant Cuticles Yeats, Trevor H.; Rose, Jocelyn K. C. Plant Physiology, Vol. 163, Issue 1 https://doi.org/10.1104/pp.113.222737	journal	July 2013
Biogeographical regions and phytogeography of the eucalypts González-Orozco, Carlos E.; Thornhill, Andrew H.; Knerr, Nunzio Diversity and Distributions, Vol. 20, Issue 1 https://doi.org/10.1111/ddi.12129	journal	September 2013
Forest genomics: Advancing climate adaptation, forest health, productivity, and conservation Isabel, Nathalie; Holliday, Jason A.; Aitken, Sally N. Evolutionary Applications, Vol. 13, Issue 1 https://doi.org/10.1111/eva.12902	journal	June 2019
Climate and geochemistry as drivers of eucalypt diversification in Australia Bui, E. N.; Thornhill, A. H.; González-Orozco, C. E. Geobiology, Vol. 15, Issue 3 https://doi.org/10.1111/gbi.12235	journal	April 2017
Linking plant genotype, plant defensive chemistry and mammal browsing in a Eucalyptus species O'Reilly-Wapstra, J. M.; Mcarthur, C.; Potts, B. M. Functional Ecology, Vol. 18, Issue 5 https://doi.org/10.1111/j.0269-8463.2004.00887.x	journal	October 2004
Historical biogeographical patterns in continental Australia: congruence among areas of endemism of two major clades of eucalypts Ladiges, Pauline; Parra-O., Carlos; Gibbs, Adele Cladistics, Vol. 27, Issue 1 https://doi.org/10.1111/j.1096-0031.2010.00315.x	journal	January 2011
mlRho - a program for estimating the population mutation and recombination rates from shotgun-sequenced diploid genomes Haubold, Bernhard; Pfaffelhuber, Peter; Lynch, Michael Molecular Ecology, Vol. 19 https://doi.org/10.1111/j.1365-294X.2009.04482.x	journal	March 2010
Linking isoprene with plant thermotolerance, antioxidants and monoterpene emissions Penuelas, J.; Llusia, J.; Asensio, D. Plant, Cell and Environment, Vol. 28, Issue 3 https://doi.org/10.1111/j.1365-3040.2004.01250.x	journal	March 2005
A duplicated pair of Arabidopsis RING-finger E3 ligases contribute to the RPM1- and RPS2-mediated hypersensitive response: Transmembrane RING-E3 ligases and the HR Kawasaki, Tsutomu; Nam, Jaesung; Boyes, Douglas C. The Plant Journal, Vol. 44, Issue 2 https://doi.org/10.1111/j.1365-313X.2005.02525.x	journal	September 2005
The R2R3-MYB transcription factor HAG1/MYB28 is a regulator of methionine-derived glucosinolate biosynthesis in Arabidopsis thaliana: HAG1 and glucosinolate biosynthesis Gigolashvili, Tamara; Yatusevich, Ruslan; Berger, Bettina The Plant Journal, Vol. 51, Issue 2 https://doi.org/10.1111/j.1365-313X.2007.03133.x	journal	May 2007
The family of terpene synthases in plants: a mid-size family of genes for specialized metabolism that is highly diversified throughout the kingdom: Terpene synthase family Chen, Feng; Tholl, Dorothea; Bohlmann, Jörg The Plant Journal, Vol. 66, Issue 1 https://doi.org/10.1111/j.1365-313X.2011.04520.x	journal	March 2011
Association genetics in Corymbia citriodora subsp. variegata identifies single nucleotide polymorphisms affecting wood growth and cellulosic pulp yield Dillon, Shannon K.; Brawner, Jeremy T.; Meder, Roger New Phytologist, Vol. 195, Issue 3 https://doi.org/10.1111/j.1469-8137.2012.04200.x	journal	June 2012
Plant Terpenoids: Biosynthesis and Ecological Functions Cheng, Ai-Xia; Lou, Yong-Gen; Mao, Ying-Bo Journal of Integrative Plant Biology, Vol. 49, Issue 2 https://doi.org/10.1111/j.1744-7909.2007.00395.x	journal	February 2007
A flexible multi-species genome-wide 60K SNP chip developed from pooled resequencing of 240 Eucalyptus tree genomes across 12 species Silva-Junior, Orzenil B.; Faria, Danielle A.; Grattapaglia, Dario New Phytologist, Vol. 206, Issue 4 https://doi.org/10.1111/nph.13322	journal	February 2015
Genome-wide patterns of recombination, linkage disequilibrium and nucleotide diversity from pooled resequencing and single nucleotide polymorphism genotyping unlock the evolutionary history of Eucalyptus grandis Silva-Junior, Orzenil B.; Grattapaglia, Dario New Phytologist, Vol. 208, Issue 3 https://doi.org/10.1111/nph.13505	journal	June 2015
Regional heritability mapping and genome-wide association identify loci for complex growth, wood and disease resistance traits in Eucalyptus Resende, Rafael Tassinari; Resende, Marcos Deon Vilela; Silva, Fabyano Fonseca New Phytologist, Vol. 213, Issue 3 https://doi.org/10.1111/nph.14266	journal	November 2016
The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray) Tuskan, G. A.; DiFazio, S.; Jansson, S. Science, Vol. 313, Issue 5793, p. 1596-1604 https://doi.org/10.1126/science.1128691	journal	September 2006
Nuclear DNA content of commercially important Eucalyptus species and hybrids Grattapaglia, D.; Bradshaw Jr., H. D. Canadian Journal of Forest Research, Vol. 24, Issue 5 https://doi.org/10.1139/x94-142	journal	May 1994
A LKALOID B IOSYNTHESIS IN P LANTS : Biochemistry, Cell Biology, Molecular Regulation, and Metabolic Engineering Applications Facchini, Peter J. Annual Review of Plant Physiology and Plant Molecular Biology, Vol. 52, Issue 1 https://doi.org/10.1146/annurev.arplant.52.1.29	journal	June 2001
Alkaloid Biosynthesis: Metabolism and Trafficking Ziegler, Jörg; Facchini, Peter J. Annual Review of Plant Biology, Vol. 59, Issue 1 https://doi.org/10.1146/annurev.arplant.59.032607.092730	journal	June 2008
Uncovering the novel characteristics of Asian honey bee, Apis cerana, by whole genome sequencing Park, Doori; Jung, Je Won; Choi, Beom-Soon BMC Genomics, Vol. 16, Issue 1 https://doi.org/10.1186/1471-2164-16-1	journal	January 2015
Protocol: a simple method for extracting next-generation sequencing quality genomic DNA from recalcitrant plant species Healey, Adam; Furtado, Agnelo; Cooper, Tal Plant Methods, Vol. 10, Issue 1 https://doi.org/10.1186/1746-4811-10-21	journal	January 2014
Diversity Arrays Technology (DArT) and next-generation sequencing combined: genome-wide, high throughput, highly informative genotyping for molecular breeding of Eucalyptus Sansaloni, Carolina; Petroli, Cesar; Jaccoud, Damian BMC Proceedings, Vol. 5, Issue S7 https://doi.org/10.1186/1753-6561-5-S7-P54	journal	September 2011
A genome triplication associated with early diversification of the core eudicots Jiao, Yuannian; Leebens-Mack, Jim; Ayyampalayam, Saravanaraj Genome Biology, Vol. 13, Issue 1 https://doi.org/10.1186/gb-2012-13-1-r3	journal	January 2012
The Eucalyptus terpene synthase gene family Külheim, Carsten; Padovan, Amanda; Hefer, Charles BMC Genomics, Vol. 16, Issue 1 https://doi.org/10.1186/s12864-015-1598-x	journal	June 2015
Substantial genome synteny preservation among woody angiosperm species: comparative genomics of Chinese chestnut (Castanea mollissima) and plant reference genomes Staton, Margaret; Zhebentyayeva, Tetyana; Olukolu, Bode BMC Genomics, Vol. 16, Issue 1 https://doi.org/10.1186/s12864-015-1942-1	journal	October 2015
Genome-wide variation in recombination rate in Eucalyptus Gion, Jean-Marc; Hudson, Corey J.; Lesur, Isabelle BMC Genomics, Vol. 17, Issue 1 https://doi.org/10.1186/s12864-016-2884-y	journal	August 2016
Genome-wide SNP discovery and QTL mapping for fruit quality traits in inbred backcross lines (IBLs) of solanum pimpinellifolium using genotyping by sequencing Celik, Ibrahim; Gurbuz, Nergiz; Uncu, Ali Tevfik BMC Genomics, Vol. 18, Issue 1 https://doi.org/10.1186/s12864-016-3406-7	journal	January 2017
Comparative genomics of Eucalyptus and Corymbia reveals low rates of genome structural rearrangement Butler, J. B.; Vaillancourt, R. E.; Potts, B. M. BMC Genomics, Vol. 18, Issue 1 https://doi.org/10.1186/s12864-017-3782-7	journal	May 2017
ALLMAPS: robust scaffold ordering based on multiple maps Tang, Haibao; Zhang, Xingtan; Miao, Chenyong Genome Biology, Vol. 16, Issue 1 https://doi.org/10.1186/s13059-014-0573-1	journal	January 2015
OrthoFinder: phylogenetic orthology inference for comparative genomics Emms, David M.; Kelly, Steven Genome Biology, Vol. 20, Issue 1 https://doi.org/10.1186/s13059-019-1832-y	journal	November 2019
Genome sequence of the olive tree, Olea europaea Cruz, Fernando; Julca, Irene; Gómez-Garrido, Jèssica GigaScience, Vol. 5, Issue 1 https://doi.org/10.1186/s13742-016-0134-5	journal	June 2016
Phosphorylation-Dependent Differential Regulation of Plant Growth, Cell Death, and Innate Immunity by the Regulatory Receptor-Like Kinase BAK1 Schwessinger, Benjamin; Roux, Milena; Kadota, Yasuhiro PLoS Genetics, Vol. 7, Issue 4 https://doi.org/10.1371/journal.pgen.1002046	journal	April 2011
FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments Price, Morgan N.; Dehal, Paramvir S.; Arkin, Adam P. PLoS ONE, Vol. 5, Issue 3 https://doi.org/10.1371/journal.pone.0009490	journal	March 2010
Chloroplast variation is incongruent with classification of the Australian bloodwood eucalypts (genus Corymbia, family Myrtaceae) Schuster, Tanja M.; Setaro, Sabrina D.; Tibbits, Josquin F. G. PLOS ONE, Vol. 13, Issue 4 https://doi.org/10.1371/journal.pone.0195034	journal	April 2018
Reproductive biology of Corymbia citriodora subsp. variegata and effective pollination across its native range in Queensland, Australia Bacles, Cfe; Brooks, J.; Lee, Dj Southern Forests: a Journal of Forest Science, Vol. 71, Issue 2 https://doi.org/10.2989/SF.2009.71.2.7.822	journal	June 2009
Metabolic Fingerprint of PS3-Induced Resistance of Grapevine Leaves against Plasmopara viticola Revealed Differences in Elicitor-Triggered Defenses Adrian, Marielle; Lucio, Marianna; Roullier-Gall, Chloé Frontiers in Plant Science, Vol. 08 https://doi.org/10.3389/fpls.2017.00101	journal	February 2017
The Eucalyptus Cuticular Waxes Contribute in Preformed Defense Against Austropuccinia psidii Santos, Isaneli Batista dos; Lopes, Mariana da Silva; Bini, Andressa Peres Frontiers in Plant Science, Vol. 9 https://doi.org/10.3389/fpls.2018.01978	journal	January 2019
The age and diversification of the angiosperms re-revisited Bell, Charles D.; Soltis, Douglas E.; Soltis, Pamela S. American Journal of Botany, Vol. 97, Issue 8 https://doi.org/10.3732/ajb.0900346	journal	August 2010
Comparative genomics of Eucalyptus and Corymbia reveals low rates of genome structural rearrangement Butler, J.; Vaillancourt, R.; Potts, B. Figshare https://doi.org/10.6084/m9.figshare.c.3785504	collection	January 2017

Cited By (10)

Additional file 1 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721405.v1	dataset	January 2023
Additional file 2 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721408.v1	dataset	January 2023
Additional file 3 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721411.v1	dataset	January 2023
Additional file 4 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721414	dataset	January 2023
Additional file 5 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721417	dataset	January 2023
Additional file 6 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721420	dataset	January 2023
Additional file 7 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721423	dataset	January 2023
Additional file 8 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721426	dataset	January 2023
Additional file 9 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721429	dataset	January 2023
Additional file 10 of E. urophylla × E. grandis high-quality genome and comparative genomics provide insights on evolution and diversification of eucalyptus Shen, Chao; Li, Limei; Ouyang, Lejun figshare https://doi.org/10.6084/m9.figshare.22721432	dataset	January 2023

Similar Records

Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus

Journal Article · Fri Mar 09 23:00:00 EST 2018 · Heredity · OSTI ID:1543741

Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus

Journal Article · Fri Mar 09 19:00:00 EST 2018 · Heredity · OSTI ID:1619102

Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Forestry
Plant evolution

Pests, diseases, and aridity have shaped the genome of Corymbia citriodora

Citation Formats

References (112)

Cited By (10)

Similar Records

Related Subjects